Gene expression analysis of M. tuberculosis in patients with and without HIV co-infection
Introduction
The leading cause of death in HIV-infected individuals.
Weakened immune system
Limits sensitivity of diagnosis of TB
Support vector machine to find 251-gene signature
Genes involved in Immunological, Infectious and Inflammatory Disease
Limits sensitivity of diagnosis of TB
Our aim:
Explore genes with a significant expression enriched in HIV with TB co-infection
Compare with the 251-gene signature found with the SVM model
Introduction
Data origin
Purpose of data collection
Data handling Remove irrelevant variables Change ugly variables Handle replications
Methods
Discriptive analysis
Methods
Results - PCA
First PC explains 15% of the variance
31 PCs needed to explain 90% of variance
Results - PCA
- Slight partition of disease state on PC1
- No clear partition of gender
Results - Linear Regression
Forest plot 
Results - Linear Regression
Volcano plot 